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Miscellaneous Functions from M. Kohl
Contains several functions for statistical data analysis; e.g. for sample size and power calculations, computation of confidence intervals and tests, and generation of similarity matrices.
Omics Data Analysis
Similarity plots based on correlation and median absolute deviation (MAD); adjusting colors for heatmaps; aggregate technical replicates; calculate pairwise fold-changes and log fold-changes; compute one- and two-way ANOVA; simplified interface to package 'limma' (Ritchie et al. (2015),
Tools for Statistical Disclosure Control in Research Data Centers
Tools for researchers to explicitly show that their results comply to rules for statistical disclosure control imposed by research data centers. These tools help in checking descriptive statistics and models and in calculating extreme values that are not individual data. Also included is a simple function to create log files. The methods used here are described in the "Guidelines for the checking of output based on microdata research" by Bond, Brandt, and de Wolf (2015) < https://cros.ec.europa.eu/system/files/2024-02/Output-checking-guidelines.pdf>.
Scalable Gaussian-Process Approximations
Fast scalable Gaussian process approximations, particularly well suited to spatial (aerial, remote-sensed) and environmental data, described in more detail in Katzfuss and Guinness (2017)
Article Formats for R Markdown
A suite of custom R Markdown formats and templates for authoring journal articles and conference submissions.
Permutational Group Sequential Test for Time-to-Event Data
Permutational group-sequential tests for time-to-event data based on the log-rank test statistic. Supports exact permutation test when the censoring distributions are equal in the treatment and the control group and approximate imputation-permutation methods when the censoring distributions are different.
A Time Series Database for Official Statistics with R and PostgreSQL
Archive and manage times series data from official statistics. The 'timeseriesdb' package was designed to manage a large catalog of time series from official statistics which are typically published on a monthly, quarterly or yearly basis. Thus timeseriesdb is optimized to handle updates caused by data revision as well as elaborate, multi-lingual meta information.
High Dimensional Categorical Data Visualization
Easy visualization for datasets with more than two categorical variables and additional continuous variables. The package is particularly useful for exploring complex categorical data in the context of pathway analysis across multiple conditions. This package is now in maintenance-only mode and kept for legacy compatibility; for new projects and active development, please use the successor package 'ggdiceplot' (see < https://github.com/maflot/ggdiceplot> and < https://dice-and-domino-plot.readthedocs.io/en/latest/>).
Simulation and Data Analysis for Plant Breeders
Provides tools for simulation of plant breeding programs
as described, for example, by Melchinger and Frisch
(2023)
Parametric Time-to-Event Analysis with Variable Incubation Phases
Fit parametric models for time-to-event data that show an initial 'incubation period', i.e. a variable delay phase where no events occur. The delayed Weibull distribution serves as the foundational data model. For parameter estimation, different flavours of maximum likelihood estimation ('MLE') and the method of maximum product of spacings estimation ('MPSE') are implemented. Bootstrap confidence intervals for parameters and significance tests in a two group setting are provided.